Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.4.2.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00249	0.847
27DAP/17DAP	1.16069	0.89
39DAP/27DAP	0.83635	0.392
41DAP/39DAP	1.68521	0.295
42DAP/41DAP	1.62898	0.426
43DAP/42DAP	0.95189	0.892
47DAP/43DAP	0.81149	0.424
52DAP/47DAP	1.9699	0.514
57DAP/52DAP	0.85383	0.456

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00202	0.824
17DAP/reference	0.90048	0.06
27DAP/reference	0.95335	0.257
39DAP/reference	0.97876	0.68
41DAP/reference	0.97313	0.542
42DAP/reference	0.9309	0.025
43DAP/reference	1.01958	0.617
47DAP/reference	0.91525	0.015
52DAP/reference	0.90161	0.108
57DAP/reference	0.90947	0.118

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92743	0.509
27DAP/17DAP	1.03586	0.98
39DAP/27DAP	1.02253	0.862
41DAP/39DAP	0.97696	0.968
42DAP/41DAP	1.02404	0.882
43DAP/42DAP	1.04315	0.746
47DAP/43DAP	1.14131	0.744
52DAP/47DAP	1.12548	0.645
57DAP/52DAP	0.84751	0.328
57DAP/7DAP	1.05393	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87208	0.138
17DAP/reference	0.85898	0.056
27DAP/reference	0.80092	0.011
39DAP/reference	0.92091	0.198
41DAP/reference	0.89276	0.049
42DAP/reference	0.80171	0.032
43DAP/reference	0.97796	0.459
47DAP/reference	0.94469	0.383
52DAP/reference	0.88574	0.106
57DAP/reference	0.87424	0.061

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9779	0.706
17DAP/reference	0.90674	0.102
27DAP/reference	0.92562	0.195
39DAP/reference	0.939	0.152
41DAP/reference	0.93032	0.16
42DAP/reference	0.96238	0.392
43DAP/reference	1.15713	0.235
47DAP/reference	0.98221	0.512
52DAP/reference	1.01566	0.747
57DAP/reference	1.09729	0.048

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82437	0.098
17DAP/reference	0.97723	0.668
27DAP/reference	0.8056	0.056
39DAP/reference	0.79373	0.037
41DAP/reference	0.83383	0.05
42DAP/reference	0.82689	0.134
43DAP/reference	0.84137	0.042
47DAP/reference	1.02673	0.76
52DAP/reference	0.74745	0.139
57DAP/reference	0.88439	0.127

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.21079	0.916
26DAP/20DAP	0.9376	1
34DAP/26DAP	1.02755	1
51DAP/34DAP	0.88521	0.618
52DAP/51DAP	0.9944	1
53DAP/52DAP	1.07696	0.783
55DAP/53DAP	1.15261	0.348
57DAP/55DAP	0.87202	0.464
62DAP/57DAP	1.2377	0.185
68DAP/62DAP	1.15233	0.936
68DAP/14DAP	1.01139	1

Experiment: Tomato (breaker-stage) vs. Pepper (breaker-stage)

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.7219	0.023

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	3.46407	0.058
Mature Green Tomato/Ripe Tomato	1.45128	0.086
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.27473	1
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.98374	1
1-1-2/M82	0.99344
12-2/M82	1.25609
12-4/M82	1.08687
1-3/M82	0.85856	1
2-1-1/M82	1.00875	1
2-1/M82	N/A	N/A
2-6/M82	1.12806	0.695
3-2/M82	N/A	N/A
4-1-1/M82	1.04438	1
4-1/M82	1.21212	1
4-3-2/M82	1.26794
4-3/M82	1.07877	1
5-3/M82	0.93971	0.642
6-2/M82	0.69124
6-3/M82	N/A	N/A
7-1/M82	1.15003
7-2/M82	0.8995	0.599
9-3-2/M82	1.06854

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.72526
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.54166
IL7-3/WTpooled	0.54175
IL12-4/WTpooled	0.88831	0.71
IL1-4/WTpooled	1.04555
WT/WTpooled	1.01117	1

Experiment: Transcriptional changes determined by expression of the Xanthomonas AvrRxv effector in resistant tomato plants

hybridization	ratio	FDR (corrected p value)
10 h post inoculation	0.93262	0.975

Experiment: Time course of DC3000 vs delta hrp on tomato Prf-3

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03471	0.921
DC3000/delta hrp 6h	1.04764	1
DC3000/delta hrp 12h	1.01875	1
DC3000/delta hrp 24h	1.00821	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.47018	0.023
DC3000 delta B/DC3000 delta AB	0.38901

Experiment: Matt's wild cherry tomato vs. Phytophthora infestans

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.91908	1
Exp 36h	0.82062	0.449
Exp 60h	0.60587	0.259

Experiment: Gene expression profiling of infection of tomato by Phytophthora infestans in the field

hybridization	ratio	FDR (corrected p value)
self-self	0.92175	1
Var 0h	7.45594	0.936
Var 12h I row2-row1	0.6695	0.344
Var 12h NI row2-row1	0.94262	0.82
Var 36h I row2-row1	0.95379	1
Var 36h NI row2-row1	1.19962	1
Var 60h I row2-row1	1.49375	0.562
Var 60h NI row2-row1	0.94936	1
Time course 0hI-0hNI	0.95147	0.709
Time course 12hI-12hNI	0.94053	0.569
Time course 36hI-36hNI	0.77191	0.023
Time course 60hI-60hNI	0.14388	0.005

Experiment: Transcriptional profiling of the tomato fruit pericarp tissue: fruits overexpressing yeast ySAMdc gene and controls

hybridization	ratio	FDR (corrected p value)
transgenic ySAMdc/azygous control (mature green)	1.00856	0.863
transgenic ySAMdc/azygous control (breaker)	0.98555	1
transgenic ySAMdc/azygous control (red)	0.8511	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01539	0.471

Experiment: Microarray Analysis on Salt Stress Affected Genes in Tomato Seedlings

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.32642	0.239

Experiment: Transcriptional Profiling of high pigment-2dg Tomato Mutant Fruit

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	4.2958	0.086
Manapal/WT (break)	1.28181	0.381
Manapal/WT (red)	0.85905	0.184